Multiple sequence alignment - TraesCS3A01G278300

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3A01G278300 chr3A 100.000 3730 0 0 1 3730 507772547 507768818 0.000000e+00 6889.0
1 TraesCS3A01G278300 chr3A 82.308 130 20 3 720 848 750102051 750102178 3.940000e-20 110.0
2 TraesCS3A01G278300 chr3D 95.441 3663 144 11 1 3655 386303963 386300316 0.000000e+00 5818.0
3 TraesCS3A01G278300 chr3D 92.025 163 11 1 1867 2027 449740437 449740275 1.040000e-55 228.0
4 TraesCS3A01G278300 chr3B 93.640 3365 149 20 1 3327 501988665 501985328 0.000000e+00 4968.0
5 TraesCS3A01G278300 chr3B 94.884 215 11 0 3319 3533 501981095 501980881 1.660000e-88 337.0
6 TraesCS3A01G278300 chr3B 89.881 168 12 4 1857 2020 201028673 201028507 1.050000e-50 211.0
7 TraesCS3A01G278300 chr2A 94.231 156 7 1 1867 2020 758586583 758586738 1.730000e-58 237.0
8 TraesCS3A01G278300 chr2A 89.809 157 14 2 1866 2020 84154279 84154123 2.270000e-47 200.0
9 TraesCS3A01G278300 chr1B 92.727 165 8 3 1860 2021 325812708 325812545 6.230000e-58 235.0
10 TraesCS3A01G278300 chr4D 93.631 157 8 1 1867 2021 326382603 326382447 2.240000e-57 233.0
11 TraesCS3A01G278300 chr4D 88.506 87 8 2 712 797 425699103 425699188 1.830000e-18 104.0
12 TraesCS3A01G278300 chr7D 92.169 166 9 3 1859 2020 397554912 397555077 8.060000e-57 231.0
13 TraesCS3A01G278300 chr1D 90.805 174 12 3 1860 2030 225704947 225704775 2.900000e-56 230.0
14 TraesCS3A01G278300 chr7A 92.949 156 9 1 1867 2020 451519966 451519811 3.750000e-55 226.0
15 TraesCS3A01G278300 chr7A 97.368 76 2 0 3655 3730 652296182 652296257 3.020000e-26 130.0
16 TraesCS3A01G278300 chr4A 87.135 171 17 4 1857 2023 676876858 676877027 4.920000e-44 189.0
17 TraesCS3A01G278300 chr5D 75.893 224 36 8 562 777 241357479 241357692 8.530000e-17 99.0
18 TraesCS3A01G278300 chr6D 82.051 117 13 6 736 848 163827133 163827021 3.970000e-15 93.5
19 TraesCS3A01G278300 chr6A 80.672 119 18 5 730 846 11494822 11494707 1.850000e-13 87.9
20 TraesCS3A01G278300 chr7B 94.118 51 2 1 730 779 261029459 261029409 3.990000e-10 76.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3A01G278300 chr3A 507768818 507772547 3729 True 6889 6889 100.000 1 3730 1 chr3A.!!$R1 3729
1 TraesCS3A01G278300 chr3D 386300316 386303963 3647 True 5818 5818 95.441 1 3655 1 chr3D.!!$R1 3654
2 TraesCS3A01G278300 chr3B 501985328 501988665 3337 True 4968 4968 93.640 1 3327 1 chr3B.!!$R3 3326

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
654 657 0.034477 GGCAGTTTTGGGCCTAGCTA 60.034 55.000 4.53 0.00 46.74 3.32 F
817 822 2.937689 AGGCCAGGCTCACCATGT 60.938 61.111 12.43 0.00 39.06 3.21 F
2069 2109 0.384309 TCTTAGCGTATGGCCTGTCG 59.616 55.000 3.32 6.99 45.17 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1596 1604 1.510492 TCAGCCTGGCCATGAATAGA 58.490 50.000 16.57 0.41 0.00 1.98 R
2687 2731 1.821136 GAAGTTGCAAATGAGAGGGGG 59.179 52.381 0.00 0.00 0.00 5.40 R
3673 3717 0.438830 CCGTGCGCAAGTTCTAAGAC 59.561 55.000 21.67 0.00 41.68 3.01 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 4.591498 ACTAAGGGAACTACACACACATCA 59.409 41.667 0.00 0.00 42.68 3.07
33 34 2.703536 AGGGAACTACACACACATCACA 59.296 45.455 0.00 0.00 40.61 3.58
47 48 3.064408 CACATCACAGTATGCATCACCAC 59.936 47.826 0.19 0.00 42.53 4.16
56 57 1.592669 GCATCACCACCGAGATCCG 60.593 63.158 0.00 0.00 38.18 4.18
203 205 3.869747 TCGACACCGAAATCGACAA 57.130 47.368 4.04 0.00 42.18 3.18
213 215 4.243270 CCGAAATCGACAACTTACCTCTT 58.757 43.478 4.04 0.00 43.02 2.85
239 242 2.173126 AGGGGAGAGAAGATGAGTGG 57.827 55.000 0.00 0.00 0.00 4.00
265 268 4.564821 GGATAAGGTAGAACCAGTGCAACA 60.565 45.833 0.00 0.00 41.95 3.33
330 333 4.427312 CATCTGACGTGTCAATGAGATCA 58.573 43.478 14.53 0.00 39.39 2.92
434 437 0.326264 AGACCTGGTCCACTGAATGC 59.674 55.000 22.81 0.00 32.18 3.56
449 452 2.769652 AATGCGGCACATGACCTGGT 62.770 55.000 4.03 0.00 39.60 4.00
452 455 1.302431 CGGCACATGACCTGGTCAA 60.302 57.895 31.37 16.18 45.96 3.18
458 461 2.892852 CACATGACCTGGTCAAATGGTT 59.107 45.455 31.37 12.80 45.96 3.67
483 486 4.785575 GCCCAACCTGGCCTAAAT 57.214 55.556 3.32 0.00 46.11 1.40
588 591 5.051816 CCAAGCACATCACAACAAGAAAAT 58.948 37.500 0.00 0.00 0.00 1.82
623 626 2.351276 CGTTTAGCCCACCAGCCT 59.649 61.111 0.00 0.00 0.00 4.58
654 657 0.034477 GGCAGTTTTGGGCCTAGCTA 60.034 55.000 4.53 0.00 46.74 3.32
800 805 4.126437 CACGACCTGATTATAACATGCCA 58.874 43.478 0.00 0.00 0.00 4.92
817 822 2.937689 AGGCCAGGCTCACCATGT 60.938 61.111 12.43 0.00 39.06 3.21
1400 1405 8.661352 AAAATGACTTAATTTGTCTTGTTGGG 57.339 30.769 11.02 0.00 35.63 4.12
1596 1604 0.839277 TCCCATGATTGAGATGGCGT 59.161 50.000 0.00 0.00 39.36 5.68
1656 1664 3.354948 TGAACATAGCAATGCCTGAGT 57.645 42.857 11.62 0.00 36.50 3.41
2069 2109 0.384309 TCTTAGCGTATGGCCTGTCG 59.616 55.000 3.32 6.99 45.17 4.35
2112 2152 9.528018 CATTTTGTTAACTGCTTTCTCCTTTTA 57.472 29.630 7.22 0.00 0.00 1.52
2375 2415 8.836268 ACCGTTAATTTGTTATAGACTGTCAA 57.164 30.769 10.88 0.00 0.00 3.18
2388 2428 4.778579 AGACTGTCAATAATGCTGCATCT 58.221 39.130 16.55 8.83 0.00 2.90
2429 2469 7.449395 TCACCTGATCACTTGATGAATTTCTTT 59.551 33.333 0.00 0.00 41.93 2.52
2430 2470 7.754027 CACCTGATCACTTGATGAATTTCTTTC 59.246 37.037 0.00 0.00 41.93 2.62
2533 2573 8.305317 TGATACTATCTCTGCTGATGAAAGATG 58.695 37.037 0.00 0.00 0.00 2.90
2687 2731 5.125578 AGTGTTCTTGTTCTGACCCTTTTTC 59.874 40.000 0.00 0.00 0.00 2.29
2688 2732 4.401202 TGTTCTTGTTCTGACCCTTTTTCC 59.599 41.667 0.00 0.00 0.00 3.13
2756 2800 3.050703 GTGCTCCAGTCACCATACG 57.949 57.895 0.00 0.00 0.00 3.06
2855 2899 6.899393 TTTTTGCTGATGGAATCTGTAGTT 57.101 33.333 0.00 0.00 45.81 2.24
2882 2926 9.665719 TCACTGCTTAAAACTTATGATGACATA 57.334 29.630 0.00 0.00 37.87 2.29
2926 2970 3.627123 CCTGTGACGATATTCATGGCAAA 59.373 43.478 0.00 0.00 0.00 3.68
2930 2974 6.035217 TGTGACGATATTCATGGCAAATTTG 58.965 36.000 14.03 14.03 0.00 2.32
2941 2985 6.454795 TCATGGCAAATTTGAAGTAACCTTC 58.545 36.000 22.31 0.00 46.09 3.46
3006 3050 0.180878 TCGCCCTGAATGCATCATGA 59.819 50.000 0.00 0.00 37.44 3.07
3113 3157 2.061773 CTTTCAGCGTACACTGACTGG 58.938 52.381 13.07 3.38 46.13 4.00
3123 3167 4.750098 CGTACACTGACTGGTTTGATTTCT 59.250 41.667 0.00 0.00 0.00 2.52
3127 3171 5.992217 ACACTGACTGGTTTGATTTCTAGTC 59.008 40.000 0.00 0.00 40.74 2.59
3276 3320 1.484038 AATGCGGGTTACATGCCATT 58.516 45.000 0.00 0.00 0.00 3.16
3347 3391 2.159184 ACTGTCTACATCACATGGCTCG 60.159 50.000 0.00 0.00 33.60 5.03
3485 3529 7.099266 TGAGTTTGATTTGTGACACATCTTT 57.901 32.000 9.55 0.00 0.00 2.52
3579 3623 8.958119 TTAGAAGTTCTAAGACAAGCTTTTCA 57.042 30.769 19.30 0.00 34.30 2.69
3601 3645 7.581213 TCAATTTCCATCATAACATGGGTAC 57.419 36.000 0.00 0.00 43.40 3.34
3616 3660 5.768164 ACATGGGTACAAGTCAAAAGGTTAG 59.232 40.000 0.00 0.00 0.00 2.34
3628 3672 9.569122 AAGTCAAAAGGTTAGCTTACTTATTCA 57.431 29.630 8.49 0.00 0.00 2.57
3630 3674 9.216117 GTCAAAAGGTTAGCTTACTTATTCAGA 57.784 33.333 2.46 0.00 0.00 3.27
3636 3680 7.283354 AGGTTAGCTTACTTATTCAGATTTGCC 59.717 37.037 2.46 0.00 0.00 4.52
3651 3695 8.372877 TCAGATTTGCCCTTTTATTATTTCCA 57.627 30.769 0.00 0.00 0.00 3.53
3658 3702 8.477419 TGCCCTTTTATTATTTCCATAAGAGG 57.523 34.615 3.35 3.35 37.86 3.69
3659 3703 8.065007 TGCCCTTTTATTATTTCCATAAGAGGT 58.935 33.333 7.92 0.00 37.02 3.85
3660 3704 9.582648 GCCCTTTTATTATTTCCATAAGAGGTA 57.417 33.333 7.92 0.00 37.02 3.08
3670 3714 8.747538 ATTTCCATAAGAGGTAAATACACCAC 57.252 34.615 0.00 0.00 41.40 4.16
3671 3715 6.877668 TCCATAAGAGGTAAATACACCACA 57.122 37.500 0.00 0.00 41.40 4.17
3672 3716 7.260387 TCCATAAGAGGTAAATACACCACAA 57.740 36.000 0.00 0.00 41.40 3.33
3673 3717 7.335627 TCCATAAGAGGTAAATACACCACAAG 58.664 38.462 0.00 0.00 41.40 3.16
3674 3718 7.037873 TCCATAAGAGGTAAATACACCACAAGT 60.038 37.037 0.00 0.00 41.40 3.16
3675 3719 7.280205 CCATAAGAGGTAAATACACCACAAGTC 59.720 40.741 0.00 0.00 41.40 3.01
3676 3720 6.435292 AAGAGGTAAATACACCACAAGTCT 57.565 37.500 0.00 0.00 41.40 3.24
3677 3721 6.435292 AGAGGTAAATACACCACAAGTCTT 57.565 37.500 0.00 0.00 41.40 3.01
3678 3722 7.549147 AGAGGTAAATACACCACAAGTCTTA 57.451 36.000 0.00 0.00 41.40 2.10
3679 3723 7.612677 AGAGGTAAATACACCACAAGTCTTAG 58.387 38.462 0.00 0.00 41.40 2.18
3680 3724 7.453752 AGAGGTAAATACACCACAAGTCTTAGA 59.546 37.037 0.00 0.00 41.40 2.10
3681 3725 7.970102 AGGTAAATACACCACAAGTCTTAGAA 58.030 34.615 0.00 0.00 41.40 2.10
3682 3726 7.876582 AGGTAAATACACCACAAGTCTTAGAAC 59.123 37.037 0.00 0.00 41.40 3.01
3683 3727 7.876582 GGTAAATACACCACAAGTCTTAGAACT 59.123 37.037 0.00 0.00 38.55 3.01
3684 3728 9.269453 GTAAATACACCACAAGTCTTAGAACTT 57.731 33.333 0.00 0.00 40.08 2.66
3690 3734 3.174799 CAAGTCTTAGAACTTGCGCAC 57.825 47.619 11.12 0.00 46.81 5.34
3691 3735 1.419374 AGTCTTAGAACTTGCGCACG 58.581 50.000 11.12 12.17 0.00 5.34
3692 3736 0.438830 GTCTTAGAACTTGCGCACGG 59.561 55.000 18.82 13.02 0.00 4.94
3693 3737 1.132640 CTTAGAACTTGCGCACGGC 59.867 57.895 18.82 9.66 43.96 5.68
3704 3748 2.480555 GCACGGCGATCACTTTGG 59.519 61.111 16.62 0.00 0.00 3.28
3705 3749 2.325082 GCACGGCGATCACTTTGGT 61.325 57.895 16.62 0.00 0.00 3.67
3706 3750 1.497278 CACGGCGATCACTTTGGTG 59.503 57.895 16.62 0.00 44.23 4.17
3707 3751 2.325082 ACGGCGATCACTTTGGTGC 61.325 57.895 16.62 0.00 42.72 5.01
3708 3752 2.324330 CGGCGATCACTTTGGTGCA 61.324 57.895 0.00 0.00 42.72 4.57
3709 3753 1.647545 CGGCGATCACTTTGGTGCAT 61.648 55.000 0.00 0.00 42.72 3.96
3710 3754 1.378531 GGCGATCACTTTGGTGCATA 58.621 50.000 0.00 0.00 42.72 3.14
3711 3755 1.742831 GGCGATCACTTTGGTGCATAA 59.257 47.619 0.00 0.00 42.72 1.90
3712 3756 2.163412 GGCGATCACTTTGGTGCATAAA 59.837 45.455 0.00 0.00 42.72 1.40
3713 3757 3.429085 GCGATCACTTTGGTGCATAAAG 58.571 45.455 19.05 19.05 42.72 1.85
3714 3758 3.119849 GCGATCACTTTGGTGCATAAAGT 60.120 43.478 20.05 20.05 46.23 2.66
3715 3759 4.615912 GCGATCACTTTGGTGCATAAAGTT 60.616 41.667 22.06 13.32 43.71 2.66
3716 3760 5.088739 CGATCACTTTGGTGCATAAAGTTC 58.911 41.667 22.06 18.08 43.71 3.01
3717 3761 4.846779 TCACTTTGGTGCATAAAGTTCC 57.153 40.909 22.06 5.04 43.71 3.62
3718 3762 4.211125 TCACTTTGGTGCATAAAGTTCCA 58.789 39.130 22.06 7.45 43.71 3.53
3719 3763 4.646945 TCACTTTGGTGCATAAAGTTCCAA 59.353 37.500 22.06 12.47 43.71 3.53
3720 3764 5.127845 TCACTTTGGTGCATAAAGTTCCAAA 59.872 36.000 22.06 17.76 43.71 3.28
3721 3765 5.814705 CACTTTGGTGCATAAAGTTCCAAAA 59.185 36.000 22.06 6.88 43.71 2.44
3722 3766 6.482973 CACTTTGGTGCATAAAGTTCCAAAAT 59.517 34.615 22.06 9.35 43.71 1.82
3723 3767 7.655328 CACTTTGGTGCATAAAGTTCCAAAATA 59.345 33.333 22.06 2.28 43.71 1.40
3724 3768 7.655732 ACTTTGGTGCATAAAGTTCCAAAATAC 59.344 33.333 20.05 0.00 43.71 1.89
3725 3769 5.704888 TGGTGCATAAAGTTCCAAAATACG 58.295 37.500 0.00 0.00 0.00 3.06
3726 3770 5.241949 TGGTGCATAAAGTTCCAAAATACGT 59.758 36.000 0.00 0.00 0.00 3.57
3727 3771 5.571357 GGTGCATAAAGTTCCAAAATACGTG 59.429 40.000 0.00 0.00 0.00 4.49
3728 3772 6.146898 GTGCATAAAGTTCCAAAATACGTGT 58.853 36.000 0.00 0.00 0.00 4.49
3729 3773 6.639279 GTGCATAAAGTTCCAAAATACGTGTT 59.361 34.615 0.00 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 0.901827 TCGGTGGTGATGCATACTGT 59.098 50.000 0.00 0.00 0.00 3.55
33 34 1.485124 TCTCGGTGGTGATGCATACT 58.515 50.000 0.00 0.00 0.00 2.12
56 57 4.083862 GGTCTGGGAGCCACCGAC 62.084 72.222 9.28 9.28 40.11 4.79
115 116 1.143838 CGGCGGAGATGATGTCCAA 59.856 57.895 9.45 0.00 33.14 3.53
143 144 2.252855 GAGCGGCGATAGAGACGG 59.747 66.667 12.98 0.00 39.76 4.79
182 183 1.068125 TGTCGATTTCGGTGTCGATGT 60.068 47.619 9.43 0.00 46.91 3.06
200 202 4.887655 CCCTTTTGACAAGAGGTAAGTTGT 59.112 41.667 20.28 0.00 39.62 3.32
203 205 3.720002 TCCCCTTTTGACAAGAGGTAAGT 59.280 43.478 20.28 0.00 0.00 2.24
213 215 3.909995 TCATCTTCTCTCCCCTTTTGACA 59.090 43.478 0.00 0.00 0.00 3.58
239 242 4.141711 TGCACTGGTTCTACCTTATCCATC 60.142 45.833 0.00 0.00 39.58 3.51
280 283 3.998672 TTCACTCCCGCGTGGTCC 61.999 66.667 15.14 0.00 35.63 4.46
330 333 3.183775 GCACTTCGTCAATCTTAACGTGT 59.816 43.478 0.00 0.00 39.78 4.49
336 339 4.200838 TGGATGCACTTCGTCAATCTTA 57.799 40.909 0.00 0.00 32.27 2.10
434 437 0.888736 TTTGACCAGGTCATGTGCCG 60.889 55.000 23.56 0.00 42.40 5.69
449 452 2.622011 GCCGTGCCGAACCATTTGA 61.622 57.895 0.00 0.00 0.00 2.69
539 542 4.735132 GTGCGGTGCGAGTGCCTA 62.735 66.667 0.00 0.00 41.78 3.93
601 604 0.250124 CTGGTGGGCTAAACGTGTCA 60.250 55.000 0.00 0.00 0.00 3.58
603 606 1.599797 GCTGGTGGGCTAAACGTGT 60.600 57.895 0.00 0.00 0.00 4.49
623 626 3.204526 CAAAACTGCCCAAAATCAAGCA 58.795 40.909 0.00 0.00 0.00 3.91
686 689 9.332301 CGGTCGCTTACTTTTTATTTATTTCAA 57.668 29.630 0.00 0.00 0.00 2.69
800 805 2.541907 AACATGGTGAGCCTGGCCT 61.542 57.895 16.57 2.26 35.27 5.19
1179 1184 3.270877 CGACCAATCCGAGGAAAAGAAT 58.729 45.455 0.00 0.00 0.00 2.40
1596 1604 1.510492 TCAGCCTGGCCATGAATAGA 58.490 50.000 16.57 0.41 0.00 1.98
1656 1664 3.572255 GCTTCCCACAACAACCATTCTAA 59.428 43.478 0.00 0.00 0.00 2.10
2264 2304 5.120363 GTCTTTCGGGATGTCAGTTCTTAAC 59.880 44.000 0.00 0.00 0.00 2.01
2265 2305 5.235516 GTCTTTCGGGATGTCAGTTCTTAA 58.764 41.667 0.00 0.00 0.00 1.85
2266 2306 4.617530 CGTCTTTCGGGATGTCAGTTCTTA 60.618 45.833 0.00 0.00 35.71 2.10
2267 2307 3.665190 GTCTTTCGGGATGTCAGTTCTT 58.335 45.455 0.00 0.00 0.00 2.52
2268 2308 2.352814 CGTCTTTCGGGATGTCAGTTCT 60.353 50.000 0.00 0.00 35.71 3.01
2269 2309 1.993370 CGTCTTTCGGGATGTCAGTTC 59.007 52.381 0.00 0.00 35.71 3.01
2270 2310 2.080286 CGTCTTTCGGGATGTCAGTT 57.920 50.000 0.00 0.00 35.71 3.16
2271 2311 3.814577 CGTCTTTCGGGATGTCAGT 57.185 52.632 0.00 0.00 35.71 3.41
2358 2398 8.397906 GCAGCATTATTGACAGTCTATAACAAA 58.602 33.333 16.68 1.09 29.60 2.83
2388 2428 5.860941 TCAGGTGAACCAAAATAAGCAAA 57.139 34.783 1.62 0.00 38.89 3.68
2429 2469 7.498900 CAGTGTAGCATATCCATTTTGTAAGGA 59.501 37.037 0.00 0.00 35.59 3.36
2430 2470 7.255242 CCAGTGTAGCATATCCATTTTGTAAGG 60.255 40.741 0.00 0.00 0.00 2.69
2487 2527 9.044646 AGTATCAAGATGCTCCATACAATATCT 57.955 33.333 0.00 0.00 0.00 1.98
2533 2573 7.411804 GGTGTACAAGCAACATAAAATTCATGC 60.412 37.037 0.00 0.00 0.00 4.06
2687 2731 1.821136 GAAGTTGCAAATGAGAGGGGG 59.179 52.381 0.00 0.00 0.00 5.40
2688 2732 2.490903 CTGAAGTTGCAAATGAGAGGGG 59.509 50.000 0.00 0.00 0.00 4.79
2756 2800 4.500127 GGAAGGCTAAACTGAAGACTCTC 58.500 47.826 0.00 0.00 28.16 3.20
2855 2899 8.389779 TGTCATCATAAGTTTTAAGCAGTGAA 57.610 30.769 0.00 0.00 0.00 3.18
2882 2926 3.012518 GCAATAAGATGACTGGCACACT 58.987 45.455 0.00 0.00 0.00 3.55
3113 3157 6.480320 ACTGGCATATCGACTAGAAATCAAAC 59.520 38.462 0.00 0.00 0.00 2.93
3123 3167 3.288092 ACTGTGACTGGCATATCGACTA 58.712 45.455 0.00 0.00 0.00 2.59
3127 3171 2.159184 ACTGACTGTGACTGGCATATCG 60.159 50.000 0.00 0.00 0.00 2.92
3206 3250 4.319177 GGCACAGAGTAGACACAGATTTT 58.681 43.478 0.00 0.00 0.00 1.82
3347 3391 8.997621 TTCACCATCAGTTAGACTAAACATAC 57.002 34.615 0.00 0.00 0.00 2.39
3556 3600 7.865706 TTGAAAAGCTTGTCTTAGAACTTCT 57.134 32.000 17.52 0.00 33.88 2.85
3557 3601 9.521503 AAATTGAAAAGCTTGTCTTAGAACTTC 57.478 29.630 17.52 5.81 33.88 3.01
3564 3608 7.950512 TGATGGAAATTGAAAAGCTTGTCTTA 58.049 30.769 17.52 6.36 33.88 2.10
3573 3617 8.042515 ACCCATGTTATGATGGAAATTGAAAAG 58.957 33.333 0.00 0.00 45.24 2.27
3579 3623 7.619302 ACTTGTACCCATGTTATGATGGAAATT 59.381 33.333 0.00 0.00 45.24 1.82
3601 3645 9.827411 GAATAAGTAAGCTAACCTTTTGACTTG 57.173 33.333 0.00 0.00 33.22 3.16
3616 3660 6.456795 AAGGGCAAATCTGAATAAGTAAGC 57.543 37.500 0.00 0.00 0.00 3.09
3651 3695 8.147244 AGACTTGTGGTGTATTTACCTCTTAT 57.853 34.615 0.00 0.00 41.43 1.73
3655 3699 7.609056 TCTAAGACTTGTGGTGTATTTACCTC 58.391 38.462 0.00 0.00 41.43 3.85
3656 3700 7.549147 TCTAAGACTTGTGGTGTATTTACCT 57.451 36.000 0.00 0.00 41.43 3.08
3657 3701 7.876582 AGTTCTAAGACTTGTGGTGTATTTACC 59.123 37.037 0.00 0.00 41.24 2.85
3658 3702 8.828688 AGTTCTAAGACTTGTGGTGTATTTAC 57.171 34.615 0.00 0.00 0.00 2.01
3671 3715 1.792949 CGTGCGCAAGTTCTAAGACTT 59.207 47.619 14.00 0.00 40.37 3.01
3672 3716 1.419374 CGTGCGCAAGTTCTAAGACT 58.581 50.000 14.00 0.00 41.68 3.24
3673 3717 0.438830 CCGTGCGCAAGTTCTAAGAC 59.561 55.000 21.67 0.00 41.68 3.01
3674 3718 1.289109 GCCGTGCGCAAGTTCTAAGA 61.289 55.000 21.67 0.00 41.68 2.10
3675 3719 1.132640 GCCGTGCGCAAGTTCTAAG 59.867 57.895 21.67 6.62 41.68 2.18
3676 3720 3.249999 GCCGTGCGCAAGTTCTAA 58.750 55.556 21.67 0.00 41.68 2.10
3687 3731 2.325082 ACCAAAGTGATCGCCGTGC 61.325 57.895 1.76 0.00 0.00 5.34
3688 3732 3.966215 ACCAAAGTGATCGCCGTG 58.034 55.556 1.76 1.18 0.00 4.94
3697 3741 4.582701 TGGAACTTTATGCACCAAAGTG 57.417 40.909 22.38 5.15 43.62 3.16
3698 3742 5.606348 TTTGGAACTTTATGCACCAAAGT 57.394 34.783 18.14 18.14 45.73 2.66
3699 3743 7.148820 CGTATTTTGGAACTTTATGCACCAAAG 60.149 37.037 17.09 17.09 46.38 2.77
3700 3744 6.642950 CGTATTTTGGAACTTTATGCACCAAA 59.357 34.615 10.44 10.44 44.99 3.28
3701 3745 6.153067 CGTATTTTGGAACTTTATGCACCAA 58.847 36.000 0.00 0.00 38.58 3.67
3702 3746 5.241949 ACGTATTTTGGAACTTTATGCACCA 59.758 36.000 0.00 0.00 0.00 4.17
3703 3747 5.571357 CACGTATTTTGGAACTTTATGCACC 59.429 40.000 0.00 0.00 0.00 5.01
3704 3748 6.146898 ACACGTATTTTGGAACTTTATGCAC 58.853 36.000 0.00 0.00 0.00 4.57
3705 3749 6.320494 ACACGTATTTTGGAACTTTATGCA 57.680 33.333 0.00 0.00 0.00 3.96


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.